Locus 2373

Sequence ID	X_DroMel_CAF1
Location	6,334,063 – 6,334,181
Length	118
Max. P	0.993065

overview

Window 0

Location	6,334,063 – 6,334,181
Length	118
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	84.93
Mean single sequence MFE	-24.21
Consensus MFE	-19.16
Energy contribution	-20.23
Covariance contribution	1.06
Combinations/Pair	1.04
Mean z-score	-3.00
Structure conservation index	0.79
SVM decision value	2.37
SVM RNA-class probability	0.993065
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6334063 118 + 22224390
-AGGCACGAGGUGAAUCAAAUGGAGCGACCAUAGAUCGCAUCCUUUUCCCUUUCCCAUCGCAUCCUUUCUACCGCUCCAUUCGAUACAGACCACU-CCCCUUGUUUCCCCCCUUUUUUUC
-.((.((((((.(((((.(((((((((......(((.((....................)))))........))))))))).))).........)-).))))))..))............ ( -23.39)
>DroSec_CAF1 18637 116 + 1
-AGGCACGAGGUGAAUCAAAUGGAGCGACCAUAGAUCGCAUCCUUUUCCCUUUC-CAUCGCAUCCUUUCUACCGCUCCAUUUGAUACAGACCACU-CCCCGCUUUUCCCCCUUUUUUUU-
-((((..(((.((.(((((((((((((......(((.((...............-....)))))........))))))))))))).)).....))-)...))))...............- ( -25.15)
>DroEre_CAF1 16222 117 + 1
AAGGCACGAGGCGAAUCAAAUGGAGCGACCAUAGAGAGCAUCUUCCCACCUUUC-CAUCGCAUCCUUUCUACCGCUCCAUUUAAUACUAA-CACUUCCCCUCUUCUCCCAUUUUUUUUU-
..((...((((.(((..((((((((((....(((((((................-.........))))))).))))))))))........-...))).)))).....))..........- ( -22.93)
>DroYak_CAF1 15003 109 + 1
-AGGCACGAGGUGAAUCAAAUGGAGCGACCAUAGAUCGCAUC------CCUUAC-CAUCGCAUCCUUUCUACCGCUCCAUUUGAUACAAACCACUUCCUCUCUUUUCCCCAUUUUGC---
-......((((((.(((((((((((((......(((.((...------......-....)))))........)))))))))))))......))))))....................--- ( -25.36)
>consensus
_AGGCACGAGGUGAAUCAAAUGGAGCGACCAUAGAUCGCAUCCUUUUCCCUUUC_CAUCGCAUCCUUUCUACCGCUCCAUUUGAUACAAACCACU_CCCCUCUUUUCCCCCUUUUUUUU_
..((...((((((.(((((((((((((....((((..((....................))......)))).)))))))))))))......)))))).)).................... (-19.16 = -20.23 +   1.06)

alignment

secondary structure

dotplot

Window 1

Location	6,334,063 – 6,334,181
Length	118
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	84.93
Mean single sequence MFE	-34.21
Consensus MFE	-27.39
Energy contribution	-27.08
Covariance contribution	-0.31
Combinations/Pair	1.10
Mean z-score	-2.68
Structure conservation index	0.80
SVM decision value	2.03
SVM RNA-class probability	0.986211
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6334063 118 - 22224390
GAAAAAAAGGGGGGAAACAAGGGG-AGUGGUCUGUAUCGAAUGGAGCGGUAGAAAGGAUGCGAUGGGAAAGGGAAAAGGAUGCGAUCUAUGGUCGCUCCAUUUGAUUCACCUCGUGCCU-
.........((((....)...(((-.((((.....((((((((((((((((((..(.((.(................).)).)..)))))...))))))))))))))))))))...)))- ( -33.99)
>DroSec_CAF1 18637 116 - 1
-AAAAAAAAGGGGGAAAAGCGGGG-AGUGGUCUGUAUCAAAUGGAGCGGUAGAAAGGAUGCGAUG-GAAAGGGAAAAGGAUGCGAUCUAUGGUCGCUCCAUUUGAUUCACCUCGUGCCU-
-..........(((....((((((-((....))(.((((((((((((((((((..(.((.(....-...........).)).)..)))))...))))))))))))).).)))))).)))- ( -36.56)
>DroEre_CAF1 16222 117 - 1
-AAAAAAAAAUGGGAGAAGAGGGGAAGUG-UUAGUAUUAAAUGGAGCGGUAGAAAGGAUGCGAUG-GAAAGGUGGGAAGAUGCUCUCUAUGGUCGCUCCAUUUGAUUCGCCUCGUGCCUU
-..........(((....((((.((....-.....(((((((((((((...........((.(((-((..((((......)))).))))).))))))))))))))))).))))...))). ( -33.40)
>DroYak_CAF1 15003 109 - 1
---GCAAAAUGGGGAAAAGAGAGGAAGUGGUUUGUAUCAAAUGGAGCGGUAGAAAGGAUGCGAUG-GUAAGG------GAUGCGAUCUAUGGUCGCUCCAUUUGAUUCACCUCGUGCCU-
---..................(((..(.(((....((((((((((((((((.......)))(((.-(((...------..))).)))......)))))))))))))..))).)...)))- ( -32.90)
>consensus
_AAAAAAAAGGGGGAAAAGAGGGG_AGUGGUCUGUAUCAAAUGGAGCGGUAGAAAGGAUGCGAUG_GAAAGGGAAAAGGAUGCGAUCUAUGGUCGCUCCAUUUGAUUCACCUCGUGCCU_
...........(((......((((........((.((((((((((((((((((..(.((....................)).)..)))))...))))))))))))).))))))...))). (-27.39 = -27.08 +  -0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:57 2006